Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3vhm NPK Avidin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3vhm NPKAvidin / 1.173
3vhi VHIAvidin / 0.816
2c4i BTNAvidin / 0.745
4yvb BTNStreptavidin / 0.717
2izi BTNStreptavidin / 0.711
1swp BTNStreptavidin / 0.709
2izj BTNStreptavidin / 0.704
2y3f BTNStreptavidin / 0.703
2izf BTNStreptavidin / 0.702
2fhl BNIAvidin-related protein 4/5 / 0.701
2fhn BNIAvidin-related protein 4/5 / 0.700
2rtg BTNStreptavidin / 0.700
1stp BTNStreptavidin / 0.699
1y52 BTNAvidin-related protein 4/5 / 0.698
2rtf BTNStreptavidin / 0.695
1swp BTQStreptavidin / 0.693
2rte BTNStreptavidin / 0.693
2izg BTNStreptavidin / 0.690
1mk5 BTNStreptavidin / 0.689
2rtd BTNStreptavidin / 0.689
1swr BTNStreptavidin / 0.688
1lcw SHMStreptavidin / 0.686
2izh BTNStreptavidin / 0.685
2avi BTNAvidin / 0.681
3ry2 BTNStreptavidin / 0.678
1n9m BTNStreptavidin / 0.676
3wyq BTNStreptavidin / 0.674
1luq BTNStreptavidin / 0.667
1mep BTNStreptavidin / 0.667
3wyp BSOStreptavidin / 0.667
2uz2 BTNAvd protein / 0.666
1i9h BNIStreptavidin / 0.664
4dne DTBStreptavidin / 0.663
4ggz BTNBll1558 protein / 0.663
3ew2 BTNHypothetical conserved protein / 0.662
2jgs BTNAvidin / 0.661
2zsc BTNTamavidin2 / 0.659
1lcz BH7Streptavidin / 0.653
1avd BTNAvidin / 0.651
2uyw BTNAvd protein / 0.650